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<title>MolTK C++ API: moltk::dp::DPCell&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; Struct Template Reference</title>

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<a href="#pub-types">Public Types</a> &#124;
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<div class="title">moltk::dp::DPCell&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; Struct Template Reference</div>  </div>
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<!-- doxytag: class="moltk::dp::DPCell" -->
<p>Generic node in dynamic programming table.  
 <a href="structmoltk_1_1dp_1_1DPCell.html#details">More...</a></p>

<p><code>#include &lt;<a class="el" href="DPTable_8hpp_source.html">DPTable.hpp</a>&gt;</code></p>

<p><a href="structmoltk_1_1dp_1_1DPCell-members.html">List of all members.</a></p>
<table class="memberdecls">
<tr><td colspan="2"><h2><a name="pub-types"></a>
Public Types</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">typedef RunningGapScore<br class="typebreak"/>
&lt; SCORE_TYPE, ALIGN_TYPE, <br class="typebreak"/>
GAP_NSEGS &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a21df740acc49e560bd19bcd56d79fae2">GapScoreType</a></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="structmoltk_1_1dp_1_1RunningScore.html">RunningScore</a>&lt; SCORE_TYPE &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ac40c80edc23e440bd171baa037a06448">ScoreType</a></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">typedef DPPosition&lt; SCORE_TYPE, <br class="typebreak"/>
ALIGN_TYPE, GAP_NSEGS &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a></td></tr>
<tr><td colspan="2"><h2><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a9dedd33524f19ae37abdaf4eac5471ff">initialize</a> (const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;pos1, const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;pos2)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#adb11a1e507b3af0aed8adfe0f19b13c4">compute_recurrence</a> (const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a> &amp;up_left, const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a> &amp;up, const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a> &amp;left, const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;pos1, const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;pos2)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacemoltk_1_1dp.html#acda879cd7560136dfc3f46cf568aff0c">TracebackPointer</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a1a68a243df895f0e49e833f17e78ca64">compute_traceback_pointer</a> () const </td></tr>
<tr><td class="memItemLeft" align="right" valign="top">SCORE_TYPE&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a2f7cedff7cedcfa22f32335a4f4ebfae">compute_v</a> () const </td></tr>
<tr><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a40748cbda17ec478a01f45c82446994d">operator==</a> (const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a> &amp;rhs) const </td></tr>
<tr><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a55ec1a019ea6d35c32db9b30610dea6d">operator&lt;</a> (const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a> &amp;rhs) const </td></tr>
<tr><td colspan="2"><h2><a name="pub-attribs"></a>
Public Attributes</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ac40c80edc23e440bd171baa037a06448">ScoreType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#aa46b7ac2c0aebc170df9229b714cab63">v</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">V, best score through this cell.  <a href="#aa46b7ac2c0aebc170df9229b714cab63"></a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ac40c80edc23e440bd171baa037a06448">ScoreType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a046ff4044916a1c22506e9db6e6ee5d8">g</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">G, best ungapped score through this cell.  <a href="#a046ff4044916a1c22506e9db6e6ee5d8"></a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a21df740acc49e560bd19bcd56d79fae2">GapScoreType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#af62bf28ecf418b8270fe93086e1c77e6">e</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">E, best score with gap in sequence 1.  <a href="#af62bf28ecf418b8270fe93086e1c77e6"></a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a21df740acc49e560bd19bcd56d79fae2">GapScoreType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#aaa778620770caf52a6551edea6ee6dfd">f</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">F, best score with gap in sequence 2.  <a href="#aaa778620770caf52a6551edea6ee6dfd"></a><br/></td></tr>
</table>
<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
<div class="textblock"><h3>template&lt;typename SCORE_TYPE, DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt;<br/>
struct moltk::dp::DPCell&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;</h3>

<p>Generic node in dynamic programming table. </p>
</div><hr/><h2>Member Typedef Documentation</h2>
<a class="anchor" id="a21df740acc49e560bd19bcd56d79fae2"></a><!-- doxytag: member="moltk::dp::DPCell::GapScoreType" ref="a21df740acc49e560bd19bcd56d79fae2" args="" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
        <tr>
          <td class="memname">typedef RunningGapScore&lt;SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS&gt; <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a21df740acc49e560bd19bcd56d79fae2">GapScoreType</a></td>
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<a class="anchor" id="ab76338d510755a760bb6606d1f2bbfac"></a><!-- doxytag: member="moltk::dp::DPCell::PositionType" ref="ab76338d510755a760bb6606d1f2bbfac" args="" -->
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<div class="memtemplate">
template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
        <tr>
          <td class="memname">typedef DPPosition&lt;SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS&gt; <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a></td>
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<a class="anchor" id="ac40c80edc23e440bd171baa037a06448"></a><!-- doxytag: member="moltk::dp::DPCell::ScoreType" ref="ac40c80edc23e440bd171baa037a06448" args="" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
        <tr>
          <td class="memname">typedef <a class="el" href="structmoltk_1_1dp_1_1RunningScore.html">RunningScore</a>&lt;SCORE_TYPE&gt; <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ac40c80edc23e440bd171baa037a06448">ScoreType</a></td>
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<hr/><h2>Member Function Documentation</h2>
<a class="anchor" id="adb11a1e507b3af0aed8adfe0f19b13c4"></a><!-- doxytag: member="moltk::dp::DPCell::compute_recurrence" ref="adb11a1e507b3af0aed8adfe0f19b13c4" args="(const DPCell &amp;up_left, const DPCell &amp;up, const DPCell &amp;left, const PositionType &amp;pos1, const PositionType &amp;pos2)" -->
<div class="memitem">
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
        <tr>
          <td class="memname">void <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::compute_recurrence </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; &amp;&#160;</td>
          <td class="paramname"><em>up_left</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; &amp;&#160;</td>
          <td class="paramname"><em>up</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; &amp;&#160;</td>
          <td class="paramname"><em>left</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;&#160;</td>
          <td class="paramname"><em>pos1</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;&#160;</td>
          <td class="paramname"><em>pos2</em>&#160;</td>
        </tr>
        <tr>
          <td></td>
          <td>)</td>
          <td></td><td><code> [inline]</code></td>
        </tr>
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<a class="anchor" id="a1a68a243df895f0e49e833f17e78ca64"></a><!-- doxytag: member="moltk::dp::DPCell::compute_traceback_pointer" ref="a1a68a243df895f0e49e833f17e78ca64" args="() const " -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
        <tr>
          <td class="memname"><a class="el" href="namespacemoltk_1_1dp.html#acda879cd7560136dfc3f46cf568aff0c">TracebackPointer</a> <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::compute_traceback_pointer </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td> const<code> [inline]</code></td>
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<a class="anchor" id="a2f7cedff7cedcfa22f32335a4f4ebfae"></a><!-- doxytag: member="moltk::dp::DPCell::compute_v" ref="a2f7cedff7cedcfa22f32335a4f4ebfae" args="() const " -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
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          <td class="memname">SCORE_TYPE <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::compute_v </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td> const<code> [inline]</code></td>
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<a class="anchor" id="a9dedd33524f19ae37abdaf4eac5471ff"></a><!-- doxytag: member="moltk::dp::DPCell::initialize" ref="a9dedd33524f19ae37abdaf4eac5471ff" args="(const PositionType &amp;pos1, const PositionType &amp;pos2)" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
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          <td class="memname">void <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::initialize </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;&#160;</td>
          <td class="paramname"><em>pos1</em>, </td>
        </tr>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ab76338d510755a760bb6606d1f2bbfac">PositionType</a> &amp;&#160;</td>
          <td class="paramname"><em>pos2</em>&#160;</td>
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          <td></td>
          <td>)</td>
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<a class="anchor" id="a55ec1a019ea6d35c32db9b30610dea6d"></a><!-- doxytag: member="moltk::dp::DPCell::operator&lt;" ref="a55ec1a019ea6d35c32db9b30610dea6d" args="(const DPCell &amp;rhs) const " -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
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          <td class="memname">bool <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::operator&lt; </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; &amp;&#160;</td>
          <td class="paramname"><em>rhs</em></td><td>)</td>
          <td> const<code> [inline]</code></td>
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<a class="anchor" id="a40748cbda17ec478a01f45c82446994d"></a><!-- doxytag: member="moltk::dp::DPCell::operator==" ref="a40748cbda17ec478a01f45c82446994d" args="(const DPCell &amp;rhs) const " -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
      <table class="memname">
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          <td class="memname">bool <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::operator== </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; &amp;&#160;</td>
          <td class="paramname"><em>rhs</em></td><td>)</td>
          <td> const<code> [inline]</code></td>
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<hr/><h2>Member Data Documentation</h2>
<a class="anchor" id="af62bf28ecf418b8270fe93086e1c77e6"></a><!-- doxytag: member="moltk::dp::DPCell::e" ref="af62bf28ecf418b8270fe93086e1c77e6" args="" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
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          <td class="memname"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a21df740acc49e560bd19bcd56d79fae2">GapScoreType</a> <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#af62bf28ecf418b8270fe93086e1c77e6">e</a></td>
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<p>E, best score with gap in sequence 1. </p>

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<a class="anchor" id="aaa778620770caf52a6551edea6ee6dfd"></a><!-- doxytag: member="moltk::dp::DPCell::f" ref="aaa778620770caf52a6551edea6ee6dfd" args="" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
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          <td class="memname"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a21df740acc49e560bd19bcd56d79fae2">GapScoreType</a> <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#aaa778620770caf52a6551edea6ee6dfd">f</a></td>
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<p>F, best score with gap in sequence 2. </p>

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<a class="anchor" id="a046ff4044916a1c22506e9db6e6ee5d8"></a><!-- doxytag: member="moltk::dp::DPCell::g" ref="a046ff4044916a1c22506e9db6e6ee5d8" args="" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
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          <td class="memname"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ac40c80edc23e440bd171baa037a06448">ScoreType</a> <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#a046ff4044916a1c22506e9db6e6ee5d8">g</a></td>
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<p>G, best ungapped score through this cell. </p>

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<a class="anchor" id="aa46b7ac2c0aebc170df9229b714cab63"></a><!-- doxytag: member="moltk::dp::DPCell::v" ref="aa46b7ac2c0aebc170df9229b714cab63" args="" -->
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template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </div>
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          <td class="memname"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html#ac40c80edc23e440bd171baa037a06448">ScoreType</a> <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;::<a class="el" href="structmoltk_1_1dp_1_1DPCell.html#aa46b7ac2c0aebc170df9229b714cab63">v</a></td>
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<p>V, best score through this cell. </p>

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<hr/>The documentation for this struct was generated from the following file:<ul>
<li>moltk/<a class="el" href="DPTable_8hpp_source.html">DPTable.hpp</a></li>
</ul>
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